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GeneChip® CustomExpress® Array Program

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The GeneChip® CustomExpress® Array Program allows you to design GeneChip® brand expression arrays to study any genome.

The CustomExpress arrays are available in a variety of formats to accommodate content requirements, ranging from 1,600 to over 61,000 sequences per array. Researchers can specifically tailor the content of their arrays by selecting both the array size and information density.

Using high density 11µm features, arrays can be designed with up to 1.3 million unique oligonucleotides per array. This density enhancement affords nearly three times more content than previous generation 18 µm feature arrays. The probe density of 11µm arrays is exclusively supported by the GeneChip® Scanner 3000 and GeneChip® Operating Software with high-resolution upgrades.

Please contact Affymetrix about the design fee and array price and refer to our MyGeneChip™ Custom Array Design Guide (zip, 679 KB) for information about designing your array. To submit your order, complete the Expression Array Design Request Form (zip, 15 KB).

Formats with 11 µm Features*

Number of Gene Sequences represented (11pp/set)** Format Lot Size
1,600 100-2187 90+/-5
4,800 100-3660 90+/-5
10,100 49-5241 40+/-5
23,000 49-7875 40+/-5
43,600 64 55+/-5
61,200 49 40+/-5

* 11µm feature size requires GeneChip® Scanner 3000 and GeneChip® Operating Software with high-resolution upgrades.

** Each gene sequence is represented by 11 probe pairs.

Species - Specific Controls for Custom Expression Array Designs

During the process of creating your custom designed GeneChip® expression array, the Affymetrix Custom Array Design Team will add additional control probe sets to your design for each species your array is interrogating. The control probe sets we use for each species are listed below. If the species you are interrogating is not listed, please provide additional control sequences and instructions as part of your design submission.

Arabidopsis Probe Sets

  • AFFX-Athal-Actin_3_f
  • AFFX-Athal-GAPDH_3_s
  • AFFX-Athal-GAPDH_5_s
  • AFFX-Athal-GAPDH_M_s
  • AFFX-Athal-Ubq_3_f
  • AFFX-Athal-Ubq_5_f
  • AFFX-Athal-Ubq_M_f
  • AFFX-Athal-5SrRNA
  • AFFX-Athal-25SrRNA_s
  • AFFX-r2-At-U12639
  • AFFX-r2-At-Actin-5_s
  • AFFX-r2-At-Actin-M_s
  • AFFX-r2-At-Actin-3_s
  • AFFX-r2-At-GAPDH-5_s
  • AFFX-r2-At-GAPDH-3_s
  • AFFX-r2-At-Ubq-5_x
  • AFFX-r2-At-Ubq-3_x

Drosophila Probe Sets

  • AFFX-Dros-18S_rRNA_5
  • AFFX-Dros-18S_rRNA_M
  • AFFX-Dros-18S_rRNA_3
  • AFFX-Dros-ACTIN_3
  • AFFX-Dros-ACTIN_M_r
  • AFFX-Dros-ACTIN_M_f
  • AFFX-Dros-ACTIN_5
  • AFFX-Dros-GAPDH_3
  • AFFX-Dros-GAPDH_M
  • AFFX-Dros-GAPDH_5
  • AFFX-Dros-eIF-4a_5
  • AFFX-Dros-eIF-4a_M
  • AFFX-Dros-eIF-4a_3

Human Probe Sets

  • AFFX-HUMISGF3A/M97935_5
  • AFFX-HUMISGF3A/M97935_MA
  • AFFX-HUMISGF3A/M97935_MB
  • AFFX-HUMISGF3A/M97935_3
  • AFFX-HUMRGE/M10098_5
  • AFFX-HUMRGE/M10098_M
  • AFFX-HUMRGE/M10098_3
  • AFFX-HUMGAPDH/M33197_5
  • AFFX-HUMGAPDH/M33197_M
  • AFFX-HUMGAPDH/M33197_3
  • AFFX-HSAC07/X00351_5
  • AFFX-HSAC07/X00351_M
  • AFFX-HSAC07/X00351_3
  • AFFX-M27830_5
  • AFFX-M27830_M
  • AFFX-M27830_3
  • AFFX-hum_alu

Mouse Probe Sets

  • AFFX-b-ActinMur/M12481_5
  • AFFX-b-ActinMur/M12481_M
  • AFFX-b-ActinMur/M12481_3
  • AFFX-GapdhMur/M32599_5
  • AFFX-GapdhMur/M32599_M
  • AFFX-GapdhMur/M32599_3
  • AFFX-TransRecMur/X57349_5
  • AFFX-TransRecMur/X57349_M
  • AFFX-TransRecMur/X57349_3
  • AFFX-PyruCarbMur/L09192_5
  • AFFX-PyruCarbMur/L09192_MA
  • AFFX-PyruCarbMur/L09192_MB
  • AFFX-PyruCarbMur/L09192_3
  • AFFX-18SRNAMur/X00686_5
  • AFFX-18SRNAMur/X00686_M
  • AFFX-18SRNAMur/X00686_3
  • AFFX-MUR_b2
  • AFFX-MURINE_b1
  • AFFX-MURINE_B2

Pseudomonas Probe Sets

  • AFFX-YEL002C_WPB1
  • AFFX-YEL018W
  • AFFX-YEL024W_RIP1
  • AFFX-YFL039C_ACT1
  • AFFX-YER148W_SPT15
  • AFFX-YER022W_SRB4
  • AFFX-Athal_GAPDH
  • AFFX-Athal_ubq
  • AFFX-Athal_actin
  • AFFX-Bsubtilis_dapB
  • AFFX-Bsubtilis_lys
  • AFFX-Bsubtilis_pheB
  • AFFX-Bsubtilis_thrC
  • AFFX-Bsubtilis_trpD

Rat Probe Sets

  • AFFX_Rat_GAPDH_5
  • AFFX_Rat_GAPDH_M
  • AFFX_Rat_GAPDH_3
  • AFFX_Rat_Hexokinase_5
  • AFFX_Rat_Hexokinase_M
  • AFFX_Rat_Hexokinase_3
  • AFFX_Rat_beta-actin_5
  • AFFX_Rat_beta-actin_M
  • AFFX_Rat_beta-actin_3
  • AFFX_rat_5S_rRNA
  • AFFX_ratb1/X12957
  • AFFX_ratb2/X14115

Yeast Probe Sets

  • AFFX-YFL039C5
  • AFFX-YFL039CM
  • AFFX-YFL039C3
  • FFX-YER148w5
  • AFFX-YER148wM
  • AFFX-YER148w3
  • AFFX-YER022w5
  • AFFX-YER022wM
  • AFFX-YER022w3
  • AFFX-18srRnaa
  • AFFX-18srRnab
  • AFFX-18srRnac
  • AFFX-18srRnad
  • AFFX-18srRnae
  • AFFX-25srRnaa
  • AFFX-25srRnab
  • AFFX-25srRnac
  • AFFX-25srRnad
  • AFFX-25srRnae

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